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LOCUS NM_001297989 2374 bp mRNA linear INV 26-DEC-2023 B (CG12728), mRNA. ACCESSION NM_001297989 VERSION NM_001297989.1 DBLINK BioProject: PRJNA164 BioSample: SAMN02803731 KEYWORDS RefSeq. SOURCE Drosophila melanogaster (fruit fly) ORGANISM Drosophila melanogaster Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora. REFERENCE 1 (bases 1 to 2374) AUTHORS Matthews,B.B., Dos Santos,G., Crosby,M.A., Emmert,D.B., St Pierre,S.E., Gramates,L.S., Zhou,P., Schroeder,A.J., Falls,K., Strelets,V., Russo,S.M. and Gelbart,W.M. CONSRTM FlyBase Consortium TITLE Gene Model Annotations for Drosophila melanogaster: Impact of High-Throughput Data JOURNAL G3 (Bethesda) 5 (8), 1721-1736 (2015) PUBMED 26109357 REMARK Publication Status: Online-Only REFERENCE 2 (bases 1 to 2374) AUTHORS Crosby,M.A., Gramates,L.S., Dos Santos,G., Matthews,B.B., St Pierre,S.E., Zhou,P., Schroeder,A.J., Falls,K., Emmert,D.B., Russo,S.M. and Gelbart,W.M. CONSRTM FlyBase Consortium TITLE Gene Model Annotations for Drosophila melanogaster: The Rule-Benders JOURNAL G3 (Bethesda) 5 (8), 1737-1749 (2015) PUBMED 26109356 REMARK Publication Status: Online-Only REFERENCE 3 (bases 1 to 2374) AUTHORS Hoskins,R.A., Carlson,J.W., Wan,K.H., Park,S., Mendez,I., Galle,S.E., Booth,B.W., Pfeiffer,B.D., George,R.A., Svirskas,R., Krzywinski,M., Schein,J., Accardo,M.C., Damia,E., Messina,G., Mendez-Lago,M., de Pablos,B., Demakova,O.V., Andreyeva,E.N., Boldyreva,L.V., Marra,M., Carvalho,A.B., Dimitri,P., Villasante,A., Zhimulev,I.F., Rubin,G.M., Karpen,G.H. and Celniker,S.E. TITLE The Release 6 reference sequence of the Drosophila melanogaster genome JOURNAL Genome Res 25 (3), 445-458 (2015) PUBMED 25589440 REFERENCE 4 (bases 1 to 2374) AUTHORS Hoskins,R.A., Carlson,J.W., Kennedy,C., Acevedo,D., Evans-Holm,M., Frise,E., Wan,K.H., Park,S., Mendez-Lago,M., Rossi,F., Villasante,A., Dimitri,P., Karpen,G.H. and Celniker,S.E. TITLE Sequence finishing and mapping of Drosophila melanogaster heterochromatin JOURNAL Science 316 (5831), 1625-1628 (2007) PUBMED 17569867 REFERENCE 5 (bases 1 to 2374) AUTHORS Smith,C.D., Shu,S., Mungall,C.J. and Karpen,G.H. TITLE The Release 5.1 annotation of Drosophila melanogaster heterochromatin JOURNAL Science 316 (5831), 1586-1591 (2007) PUBMED 17569856 REMARK Erratum:[Science. 2007 Sep 7;317(5843):1325] REFERENCE 6 (bases 1 to 2374) AUTHORS Quesneville,H., Bergman,C.M., Andrieu,O., Autard,D., Nouaud,D., Ashburner,M. and Anxolabehere,D. TITLE Combined evidence annotation of transposable elements in genome sequences JOURNAL PLoS Comput Biol 1 (2), 166-175 (2005) PUBMED 16110336 REFERENCE 7 (bases 1 to 2374) AUTHORS Hoskins,R.A., Smith,C.D., Carlson,J.W., Carvalho,A.B., Halpern,A., Kaminker,J.S., Kennedy,C., Mungall,C.J., Sullivan,B.A., Sutton,G.G., Yasuhara,J.C., Wakimoto,B.T., Myers,E.W., Celniker,S.E., Rubin,G.M. and Karpen,G.H. TITLE Heterochromatic sequences in a Drosophila whole-genome shotgun assembly JOURNAL Genome Biol 3 (12), RESEARCH0085 (2002) PUBMED 12537574 REFERENCE 8 (bases 1 to 2374) AUTHORS Kaminker,J.S., Bergman,C.M., Kronmiller,B., Carlson,J., Svirskas,R., Patel,S., Frise,E., Wheeler,D.A., Lewis,S.E., Rubin,G.M., Ashburner,M. and Celniker,S.E. TITLE The transposable elements of the Drosophila melanogaster euchromatin: a genomics perspective JOURNAL Genome Biol 3 (12), RESEARCH0084 (2002) PUBMED 12537573 REFERENCE 9 (bases 1 to 2374) AUTHORS Misra,S., Crosby,M.A., Mungall,C.J., Matthews,B.B., Campbell,K.S., Hradecky,P., Huang,Y., Kaminker,J.S., Millburn,G.H., Prochnik,S.E., Smith,C.D., Tupy,J.L., Whitfied,E.J., Bayraktaroglu,L., Berman,B.P., Bettencourt,B.R., Celniker,S.E., de Grey,A.D., Drysdale,R.A., Harris,N.L., Richter,J., Russo,S., Schroeder,A.J., Shu,S.Q., Stapleton,M., Yamada,C., Ashburner,M., Gelbart,W.M., Rubin,G.M. and Lewis,S.E. TITLE Annotation of the Drosophila melanogaster euchromatic genome: a systematic review JOURNAL Genome Biol 3 (12), RESEARCH0083 (2002) PUBMED 12537572 REFERENCE 10 (bases 1 to 2374) AUTHORS Celniker,S.E., Wheeler,D.A., Kronmiller,B., Carlson,J.W., Halpern,A., Patel,S., Adams,M., Champe,M., Dugan,S.P., Frise,E., Hodgson,A., George,R.A., Hoskins,R.A., Laverty,T., Muzny,D.M., Nelson,C.R., Pacleb,J.M., Park,S., Pfeiffer,B.D., Richards,S., Sodergren,E.J., Svirskas,R., Tabor,P.E., Wan,K., Stapleton,M., Sutton,G.G., Venter,C., Weinstock,G., Scherer,S.E., Myers,E.W., Gibbs,R.A. and Rubin,G.M. TITLE Finishing a whole-genome shotgun: release 3 of the Drosophila melanogaster euchromatic genome sequence JOURNAL Genome Biol 3 (12), RESEARCH0079 (2002) PUBMED 12537568 REFERENCE 11 (bases 1 to 2374) AUTHORS Adams,M.D., Celniker,S.E., Holt,R.A., Evans,C.A., Gocayne,J.D., Amanatides,P.G., Scherer,S.E., Li,P.W., Hoskins,R.A., Galle,R.F., George,R.A., Lewis,S.E., Richards,S., Ashburner,M., Henderson,S.N., Sutton,G.G., Wortman,J.R., Yandell,M.D., Zhang,Q., Chen,L.X., Brandon,R.C., Rogers,Y.H., Blazej,R.G., Champe,M., Pfeiffer,B.D., Wan,K.H., Doyle,C., Baxter,E.G., Helt,G., Nelson,C.R., Gabor,G.L., Abril,J.F., Agbayani,A., An,H.J., Andrews-Pfannkoch,C., Baldwin,D., Ballew,R.M., Basu,A., Baxendale,J., Bayraktaroglu,L., Beasley,E.M., Beeson,K.Y., Benos,P.V., Berman,B.P., Bhandari,D., Bolshakov,S., Borkova,D., Botchan,M.R., Bouck,J., Brokstein,P., Brottier,P., Burtis,K.C., Busam,D.A., Butler,H., Cadieu,E., Center,A., Chandra,I., Cherry,J.M., Cawley,S., Dahlke,C., Davenport,L.B., Davies,P., de Pablos,B., Delcher,A., Deng,Z., Mays,A.D., Dew,I., Dietz,S.M., Dodson,K., Doup,L.E., Downes,M., Dugan-Rocha,S., Dunkov,B.C., Dunn,P., Durbin,K.J., Evangelista,C.C., Ferraz,C., Ferriera,S., Fleischmann,W., Fosler,C., Gabrielian,A.E., Garg,N.S., Gelbart,W.M., Glasser,K., Glodek,A., Gong,F., Gorrell,J.H., Gu,Z., Guan,P., Harris,M., Harris,N.L., Harvey,D., Heiman,T.J., Hernandez,J.R., Houck,J., Hostin,D., Houston,K.A., Howland,T.J., Wei,M.H., Ibegwam,C., Jalali,M., Kalush,F., Karpen,G.H., Ke,Z., Kennison,J.A., Ketchum,K.A., Kimmel,B.E., Kodira,C.D., Kraft,C., Kravitz,S., Kulp,D., Lai,Z., Lasko,P., Lei,Y., Levitsky,A.A., Li,J., Li,Z., Liang,Y., Lin,X., Liu,X., Mattei,B., McIntosh,T.C., McLeod,M.P., McPherson,D., Merkulov,G., Milshina,N.V., Mobarry,C., Morris,J., Moshrefi,A., Mount,S.M., Moy,M., Murphy,B., Murphy,L., Muzny,D.M., Nelson,D.L., Nelson,D.R., Nelson,K.A., Nixon,K., Nusskern,D.R., Pacleb,J.M., Palazzolo,M., Pittman,G.S., Pan,S., Pollard,J., Puri,V., Reese,M.G., Reinert,K., Remington,K., Saunders,R.D., Scheeler,F., Shen,H., Shue,B.C., Siden-Kiamos,I., Simpson,M., Skupski,M.P., Smith,T., Spier,E., Spradling,A.C., Stapleton,M., Strong,R., Sun,E., Svirskas,R., Tector,C., Turner,R., Venter,E., Wang,A.H., Wang,X., Wang,Z.Y., Wassarman,D.A., Weinstock,G.M., Weissenbach,J., Williams,S.M., WoodageT, Worley,K.C., Wu,D., Yang,S., Yao,Q.A., Ye,J., Yeh,R.F., Zaveri,J.S., Zhan,M., Zhang,G., Zhao,Q., Zheng,L., Zheng,X.H., Zhong,F.N., Zhong,W., Zhou,X., Zhu,S., Zhu,X., Smith,H.O., Gibbs,R.A., Myers,E.W., Rubin,G.M. and Venter,J.C. TITLE The genome sequence of Drosophila melanogaster JOURNAL Science 287 (5461), 2185-2195 (2000) PUBMED 10731132 REFERENCE 12 (bases 1 to 2374) AUTHORS Celniker,S., Carlson,J., Wan,K., Pfeiffer,B., Frise,E., George,R., Hoskins,R., Stapleton,M., Pacleb,J., Park,S., Svirskas,R., Smith,E., Yu,C. and Rubin,G. CONSRTM Berkeley Drosophila Genome Project TITLE Drosophila melanogaster release 4 sequence JOURNAL Unpublished REFERENCE 13 (bases 1 to 2374) CONSRTM NCBI Genome Project TITLE Direct Submission JOURNAL Submitted (20-DEC-2023) National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA REFERENCE 14 (bases 1 to 2374) CONSRTM FlyBase TITLE Direct Submission JOURNAL Submitted (13-DEC-2023) FlyBase, Harvard University, Biological Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA REFERENCE 15 (bases 1 to 2374) CONSRTM FlyBase TITLE Direct Submission JOURNAL Submitted (19-OCT-2022) FlyBase, Harvard University, Biological Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA REFERENCE 16 (bases 1 to 2374) CONSRTM FlyBase TITLE Direct Submission JOURNAL Submitted (20-APR-2020) FlyBase, Harvard University, Biological Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA REFERENCE 17 (bases 1 to 2374) CONSRTM FlyBase TITLE Direct Submission JOURNAL Submitted (22-APR-2019) FlyBase, Harvard University, Biological Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA REFERENCE 18 (bases 1 to 2374) CONSRTM FlyBase TITLE Direct Submission JOURNAL Submitted (24-MAY-2018) FlyBase, Harvard University, Biological Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA REFERENCE 19 (bases 1 to 2374) CONSRTM FlyBase TITLE Direct Submission JOURNAL Submitted (07-DEC-2016) FlyBase, Harvard University, Biological Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA REFERENCE 20 (bases 1 to 2374) AUTHORS Celniker,S., Carlson,J., Kennedy,C., Wan,K., Frise,E., Hoskins,R., Park,S., Svirskas,R. and Karpen,G. TITLE Direct Submission JOURNAL Submitted (10-AUG-2006) Berkeley Drosophila Genome Project, Lawrence Berkeley National Laboratory, One #Cyclotron RoadOne Cyclotron Road, MS 64-121, Berkeley, CA 94720, USA REMARK Direct Submission REFERENCE 21 (bases 1 to 2374) AUTHORS Celniker,S., Carlson,J., Wan,K., Frise,E., Hoskins,R., Park,S., Svirskas,R. and Rubin,G. TITLE Direct Submission JOURNAL Submitted (10-AUG-2006) Berkeley Drosophila Genome Project, Lawrence Berkeley National Laboratory, One Cyclotron Road, MS 64-121, Berkeley, CA 94720, USA REMARK Direct Submission REFERENCE 22 (bases 1 to 2374) AUTHORS Smith,C.D., Shu,S., Mungall,C.J. and Karpen,G.H. CONSRTM Drosophila Heterochromatin Genome Project TITLE Direct Submission JOURNAL Submitted (01-AUG-2006) Drosophila Heterochromatin Genome Project, Ernest Orlando Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Mailstop 64-121, Berkeley, CA 94720, USA REFERENCE 23 (bases 1 to 2374) AUTHORS Adams,M.D., Celniker,S.E., Gibbs,R.A., Rubin,G.M. and Venter,C.J. TITLE Direct Submission JOURNAL Submitted (21-MAR-2000) Celera Genomics, 45 West Gude Drive, Rockville, MD 20850, USA COMMENT REVIEWED REFSEQ: This record has been curated by FlyBase. This record is derived from an annotated genomic sequence (NC_004354). ##Genome-Annotation-Data-START## Annotation Provider :: FlyBase Annotation Status :: Full annotation Annotation Version :: Release 6.54 URL :: http://flybase.org ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..2374 /organism="Drosophila melanogaster" /mol_type="mRNA" /db_xref="taxon:7227" /chromosome="X" /genotype="y[1]; Gr22b[1] Gr22d[1] cn[1] CG33964[R4.2] bw[1] sp[1]; LysC[1] MstProx[1] GstD5[1] Rh6[1]" gene 1..2374 /gene="CG12728" /locus_tag="Dmel_CG12728" /gene_synonym="Dmel\CG12728; XLF1; XRCC4" /map="5C10-5C10" /db_xref="FLYBASE:FBgn0029825" /db_xref="GeneID:31526" CDS 78..1511 /gene="CG12728" /locus_tag="Dmel_CG12728" /gene_synonym="Dmel\CG12728; XLF1; XRCC4" /note="CG12728 gene product from transcript CG12728-RB; CG12728-PB; X-ray repair cross-complementing protein 4" /codon_start=1 /product="uncharacterized protein, isoform B" /protein_id="NP_001284918.1" /db_xref="FLYBASE:FBpp0309798" /db_xref="GeneID:31526" /db_xref="FLYBASE:FBgn0029825" /translation="MLLKVVNINGLQHLFACTEGQHDETLTIHVFRPREKWTYSETLM KRDYQQRLKTLNARVKFPEELVRQVLLNKDPLHVEQDYQHPLNVLKLKYAMANFKVFL KWEWHLRPMDAAQLYSQMFLNTMSTALGLRVQIPLLLGIIHAKDKELNQYRTEGCQLR KVTVETKPFDLEAFMNKHKQLLDCSAAYQKAQSTFFADKPSPNWTSLSSPWARDVAPY SSSNGYFASSKASSPKEAPRIRKRKALEINTNHMERKVMQRRSNPLVEYKSSQSSQET NVNLILKVELAPMDTKNDLTDDDEESSTSSGLSQGWSAKLTKFNPTVGSGVYELASQE QYASSEDEDASSKNGDTSSKYEDASSKDEDASSKDENTSSKDEDAPSKDEDTSSKDED ASSEYEEVTREASNAFNFVIKKVESLKEFYDAPRELIQEPKVGKSDQNWDLILRTVLE DIKAVLIYSTERIEKAIQSYINKLAQK" misc_feature <762..1397 /gene="CG12728" /locus_tag="Dmel_CG12728" /gene_synonym="Dmel\CG12728; XLF1; XRCC4" /note="MAEBL; Provisional; Region: PTZ00121" /db_xref="CDD:173412" misc_feature <1098..1292 /gene="CG12728" /locus_tag="Dmel_CG12728" /gene_synonym="Dmel\CG12728; XLF1; XRCC4" /note="Nucleosome binding factor SPN, SPT16 subunit [Transcription, Replication, recombination and repair, Chromatin structure and dynamics]; Region: COG5406" /db_xref="CDD:227693" misc_feature 1167..>1433 /gene="CG12728" /locus_tag="Dmel_CG12728" /gene_synonym="Dmel\CG12728; XLF1; XRCC4" /note="type III-E CRISPR-associated gRAMP effector Cas7-11; Region: Cas_III-E_gRAMP; NF041225" /db_xref="CDD:469128" ORIGIN 1 ttctttttca tctctacggc gtgcgtcagt gatgtttctt tcctttgatt tctgatcctt 61 ctaaacgtaa cttcaaaatg ctattgaaag tagtgaatat aaatggcttg cagcacctgt 121 tcgcctgcac tgaggggcag catgatgaaa ccctaactat tcacgttttc cgtcctcgcg 181 agaagtggac ttactccgag actttgatga aacgcgatta ccagcagcgt ttgaaaacgc 241 tcaacgcgcg tgtgaagttt cccgaggaat tggtgcgcca ggtcctgctc aacaaggatc 301 cattgcatgt cgaacaggat taccagcacc cattgaacgt cctgaaactg aagtatgcca 361 tggcgaattt caaagttttc ctcaagtggg aatggcacct gagacccatg gatgccgcac 421 agttgtatag ccaaatgttc ttgaacacaa tgtccacggc tttgggacta cgggttcaga 481 taccccttct gctagggatt atccatgcca aggacaagga gctgaaccag tatcgcaccg 541 agggatgcca gctgcgcaaa gtgactgtgg aaaccaagcc ctttgatctc gaggctttta 601 tgaataagca caagcaattg ctggactgtt ccgctgccta ccagaaggcg cagagtactt 661 tttttgctga taagccatcg cctaattgga catcgctttc ttcgccatgg gcacgggatg 721 tcgcgcccta ttcttcgtca aacggctact ttgcttcttc gaaggcatca agcccaaaag 781 aagctcctcg cattaggaag cgcaaggctc ttgaaatcaa taccaatcat atggagcgca 841 aggtaatgca gcgccgctcc aatccgcttg tcgagtacaa aagctcgcag agttcccaag 901 agacaaacgt aaatttaatc ttaaaagtag agctagcgcc aatggacacc aagaatgatc 961 tcactgatga tgacgaagag tcatccacat cttcggggct ttcccaagga tggtcggcca 1021 aactaaccaa atttaatcca accgtcggaa gtggtgtata tgaacttgca tctcaggaac 1081 agtatgcttc ttctgaagat gaggatgctt cttctaaaaa tggggatact tcttctaaat 1141 atgaggatgc ttcttctaaa gatgaggatg cttcttccaa agatgagaat acttcttcta 1201 aagatgagga tgctccgtct aaagatgagg atacttcttc taaagatgag gatgcttctt 1261 ctgaatatga agaggtcact agggaggcat cgaacgcttt caatttcgtc ataaagaagg 1321 ttgaatcttt aaaagagttt tacgatgccc caagggaact catccaagaa cccaaagtcg 1381 gaaagtccga tcagaattgg gatttaattc ttcgaactgt gctggaagat atcaaagccg 1441 tactgattta ctcaactgaa cgcatcgaaa aagcgatcca gagctatatc aataagttag 1501 cgcaaaaata atttggaaac gatctcattc taaatggtgc tacaagcaaa acttcacact 1561 tagtacatac gttttttttt tttgtttttt tttttttttt ttagataaaa acaagtcctt 1621 agtgataaaa ggataaaata catgattcca tttgttgatt aggtattcgt acctaagtcc 1681 atcgaacagc aatcaaatga aacaaagaac tgtatagtgt tgtagatatt aaaaagacgt 1741 cttatcaaac accctcagta cacgtacaca aacaagttga caaacacaaa tcctcagtga 1801 taaaaggata aagacatgat tccatttgtt gattaggtat tcgtacctaa gtccatcgaa 1861 cagcaatcaa atgaaacaaa acaatgtata gtgttgtaga ttttaaaacg tcttaccaaa 1921 acaccctcag tacacaaaca agttgagttc cattgcatag aagcagcaac taactcctat 1981 ctctatggaa catatcgaat aatattaaaa tttgtcaaaa tgattgcccg gaaattttct 2041 ggtcaattat cgaccgatta gtcagggctt tccagcggtt ataacctcct gatcaatgca 2101 ttttatgtta aatatttttt ggcacgatta ctaataaaat tgataaaaaa agaaacgttt 2161 gcagtttgaa taaataatct ttaaagtttg ccttatccca tttgctttag aagctttcag 2221 ccttttcagg ctgatctagg attacaacag aaggatgaaa gacagctaga cgaggctagt 2281 tttggatcct gagtaatgct ttcctgaacc ctgaattccc acaataatgt gttgttccca 2341 tcggtgggtc acaactataa ctgatctaca catt